X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.2
Temperature 277.0
Details 22% PEG2000MME, 0.2M Ammonium Sulfate, 10mM Cd Sulfate, 1mM NMP, 0.1M sodium acetate, pH 4.2, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 55.27 α = 90
b = 76.24 β = 93.33
c = 60.44 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 -- SSRL BL11-1

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.8 19.79 -- -- -- -- -- 44580 44580 0.0 -3.0 23.8

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 1.8 19.79 -- 2.0 46434 44164 1341 95.1 -- -- 0.22 0.253 random
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.8 1.88 4049 145 3904 0.315 0.304 0.025 69.9
X Ray Diffraction 1.88 1.98 5426 160 5266 0.247 0.242 0.019 93.6
X Ray Diffraction 1.98 2.1 5681 176 5505 0.228 0.227 0.017 98.2
X Ray Diffraction 2.1 2.27 5733 195 5538 0.226 0.228 0.016 98.9
X Ray Diffraction 2.27 2.49 5769 158 5611 0.228 0.229 0.018 99.5
X Ray Diffraction 2.49 2.86 5796 181 5615 0.226 0.228 0.017 99.8
X Ray Diffraction 2.86 3.59 5812 153 5659 0.226 0.231 0.019 99.9
X Ray Diffraction 3.59 19.79 5898 173 5725 0.198 0.196 0.015 99.9
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.79
Anisotropic B[1][1] 1.43
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 4.95
Anisotropic B[2][2] 3.94
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.37
RMS Deviations
Key Refinement Restraint Deviation
x_bond_d 0.005
x_torsion_impr_deg 0.78
x_torsion_deg 26.7
x_angle_deg 1.3
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.22
Luzzati Sigma A (Observed) 0.13
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.26
Luzzati Sigma A (R-Free Set) 0.18
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3261
Nucleic Acid Atoms 0
Heterogen Atoms 43
Solvent Atoms 505

Software

Software
Software Name Purpose
CNS refinement version: 1.0
DENZO data reduction
SCALEPACK data scaling
EPMR phasing